RNA 3D Hub //

Equivalence class NR_3.0_97519.2 Obsolete

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. ÅDate
11VY4|1|BA (rep)Large subunit ribosomal RNA23S Ribosomal RNAThermus thermophilusBacteriaRF02541Crystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing acylated tRNA-substrates in the A and P sites.X-ray diffraction2.62014-08-20
24V8I|1|DALarge subunit ribosomal RNA23S Ribosomal RNAThermus thermophilusBacteriaRF02541Crystal structure of YfiA bound to the 70S ribosome.X-ray diffraction2.72014-07-09
34V9R|1|BALarge subunit ribosomal RNA23S Ribosomal RNAThermus thermophilusBacteriaRF02541Crystal structure of antibiotic DITYROMYCIN bound to 70S ribosomeX-ray diffraction32014-07-09
44W2H|1|BALarge subunit ribosomal RNA23S Ribosomal RNAThermus thermophilusBacteriaRF02541Crystal structure of the Thermus thermophilus 70S ribosome in complex with pactamycin (co-crystallized), mRNA and deacylated tRNA in the P siteX-ray diffraction2.72014-10-15
54W2F|1|BALarge subunit ribosomal RNA23S Ribosomal RNAThermus thermophilusBacteriaRF02541Crystal structure of the Thermus thermophilus 70S ribosome in complex with amicoumacin, mRNA and three deacylated tRNAs in the A, P and E sitesX-ray diffraction2.42014-10-15
64W2G|1|BALarge subunit ribosomal RNA23S Ribosomal RNAThermus thermophilusBacteriaRF02541Crystal structure of the Thermus thermophilus 70S ribosome in complex with pactamycin (soaked), mRNA and three deacylated tRNAs in the A, P and E sitesX-ray diffraction2.552014-10-15
74W2I|1|BALarge subunit ribosomal RNA23S Ribosomal RNAThermus thermophilusBacteriaRF02541Crystal structure of the Thermus thermophilus 70S ribosome in complex with negamycin, mRNA and three deacylated tRNAs in the A, P and E sitesX-ray diffraction2.72014-10-15
84V8I|1|BALarge subunit ribosomal RNA23S Ribosomal RNAThermus thermophilusBacteriaRF02541Crystal structure of YfiA bound to the 70S ribosome.X-ray diffraction2.72014-07-09
94V9R|1|DALarge subunit ribosomal RNA23S Ribosomal RNAThermus thermophilusBacteriaRF02541Crystal structure of antibiotic DITYROMYCIN bound to 70S ribosomeX-ray diffraction32014-07-09
101VY5|1|BALarge subunit ribosomal RNA23S Ribosomal RNAThermus thermophilusBacteriaRF02541Crystal structure of the Thermus thermophilus 70S ribosome in the post-catalysis state of peptide bond formation containing dipeptydil-tRNA in the A site and deacylated tRNA in the P site.X-ray diffraction2.552014-08-20
111VY4|1|DALarge subunit ribosomal RNA23S Ribosomal RNAThermus thermophilusBacteriaRF02541Crystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing acylated tRNA-substrates in the A and P sites.X-ray diffraction2.62014-08-20
121VY7|1|BALarge subunit ribosomal RNA23S Ribosomal RNA, Cytidine-PuromycinThermus thermophilusBacteriaRF02541Crystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing short substrate-mimic Cytidine-Cytidine-Puromycin in the A site and acylated tRNA in the P site.X-ray diffraction2.82014-08-20
134W2H|1|DALarge subunit ribosomal RNA23S Ribosomal RNAThermus thermophilusBacteriaRF02541Crystal structure of the Thermus thermophilus 70S ribosome in complex with pactamycin (co-crystallized), mRNA and deacylated tRNA in the P siteX-ray diffraction2.72014-10-15
144V8G|1|DALarge subunit ribosomal RNA23S Ribosomal RNAThermus thermophilusBacteriaRF02541Crystal structure of RMF bound to the 70S ribosome.X-ray diffraction32014-07-09
154W2F|1|DALarge subunit ribosomal RNA23S Ribosomal RNAThermus thermophilusBacteriaRF02541Crystal structure of the Thermus thermophilus 70S ribosome in complex with amicoumacin, mRNA and three deacylated tRNAs in the A, P and E sitesX-ray diffraction2.42014-10-15
164V8G|1|BALarge subunit ribosomal RNA23S Ribosomal RNAThermus thermophilusBacteriaRF02541Crystal structure of RMF bound to the 70S ribosome.X-ray diffraction32014-07-09
174W2I|1|DALarge subunit ribosomal RNA23S Ribosomal RNAThermus thermophilusBacteriaRF02541Crystal structure of the Thermus thermophilus 70S ribosome in complex with negamycin, mRNA and three deacylated tRNAs in the A, P and E sitesX-ray diffraction2.72014-10-15
181VY6|1|BALarge subunit ribosomal RNA23S Ribosomal RNA, Cytidine-PuromycinThermus thermophilusBacteriaRF02541Crystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing short substrate-mimic Cytidine-Puromycin in the A site and acylated tRNA in the P site.X-ray diffraction2.92014-08-20
194W2G|1|DALarge subunit ribosomal RNA23S Ribosomal RNAThermus thermophilusBacteriaRF02541Crystal structure of the Thermus thermophilus 70S ribosome in complex with pactamycin (soaked), mRNA and three deacylated tRNAs in the A, P and E sitesX-ray diffraction2.552014-10-15
201VY5|1|DALarge subunit ribosomal RNA23S Ribosomal RNAThermus thermophilusBacteriaRF02541Crystal structure of the Thermus thermophilus 70S ribosome in the post-catalysis state of peptide bond formation containing dipeptydil-tRNA in the A site and deacylated tRNA in the P site.X-ray diffraction2.552014-08-20
214V9H|1|BALarge subunit ribosomal RNA23S ribosomal RNAThermus thermophilusBacteriaRF02541Crystal structure of the ribosome bound to elongation factor G in the guanosine triphosphatase stateX-ray diffraction2.862014-07-09
221VY7|1|DALarge subunit ribosomal RNA23S Ribosomal RNA, Cytidine-PuromycinThermus thermophilusBacteriaRF02541Crystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing short substrate-mimic Cytidine-Cytidine-Puromycin in the A site and acylated tRNA in the P site.X-ray diffraction2.82014-08-20
234LNT|1|YALarge subunit ribosomal RNA23S rRNA, tRNA acceptor end mimicThermus thermophilusBacteriaRF02541Crystal Structure of tRNA Proline (CGG) Bound to Codon CCC-U on the RibosomeX-ray diffraction2.942014-08-06
244W2E|1|ALarge subunit ribosomal RNA23S Ribosomal RNAThermus thermophilusBacteriaRF02541Crystal structure of Elongation Factor 4 (EF4/LepA) bound to the Thermus thermophilus 70S ribosomeX-ray diffraction2.92014-10-01
254V8B|1|BALarge subunit ribosomal RNARNA (2912-MER)Thermus thermophilusBacteriaRF02541Crystal structure analysis of ribosomal decoding (near-cognate tRNA-leu complex).X-ray diffraction32014-07-09
261VY6|1|DALarge subunit ribosomal RNA23S Ribosomal RNA, Cytidine-PuromycinThermus thermophilusBacteriaRF02541Crystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing short substrate-mimic Cytidine-Puromycin in the A site and acylated tRNA in the P site.X-ray diffraction2.92014-08-20
274V67|1|DALarge subunit ribosomal RNA23S RRNAThermus thermophilusBacteriaRF02541Crystal structure of a translation termination complex formed with release factor RF2.X-ray diffraction32014-07-09
284V8B|1|DALarge subunit ribosomal RNARNA (2912-MER)Thermus thermophilusBacteriaRF02541Crystal structure analysis of ribosomal decoding (near-cognate tRNA-leu complex).X-ray diffraction32014-07-09
294LNT|1|RALarge subunit ribosomal RNA23S rRNA, tRNA acceptor end mimicThermus thermophilusBacteriaRF02541Crystal Structure of tRNA Proline (CGG) Bound to Codon CCC-U on the RibosomeX-ray diffraction2.942014-08-06
304V67|1|BALarge subunit ribosomal RNA23S RRNAThermus thermophilusBacteriaRF02541Crystal structure of a translation termination complex formed with release factor RF2.X-ray diffraction32014-07-09
314V8D|1|BALarge subunit ribosomal RNARNA (2912-MER)Thermus thermophilusBacteriaRF02541Structure analysis of ribosomal decoding (cognate tRNA-tyr complex).X-ray diffraction32014-07-09
324V7Y|1|BALarge subunit ribosomal RNA23S ribosomal RNAThermus thermophilusBacteriaRF02541Structure of the Thermus thermophilus 70S ribosome complexed with azithromycin.X-ray diffraction32014-07-09
334V7X|1|BALarge subunit ribosomal RNA23S ribosomal RNAThermus thermophilusBacteriaRF02541Structure of the Thermus thermophilus ribosome complexed with erythromycin.X-ray diffraction32014-07-09
344V7Y|1|DALarge subunit ribosomal RNA23S ribosomal RNAThermus thermophilusBacteriaRF02541Structure of the Thermus thermophilus 70S ribosome complexed with azithromycin.X-ray diffraction32014-07-09
354V7X|1|DALarge subunit ribosomal RNA23S ribosomal RNAThermus thermophilusBacteriaRF02541Structure of the Thermus thermophilus ribosome complexed with erythromycin.X-ray diffraction32014-07-09
364V7W|1|BALarge subunit ribosomal RNA23S ribosomal RNAThermus thermophilusBacteriaRF02541Structure of the Thermus thermophilus ribosome complexed with chloramphenicol.X-ray diffraction32014-07-09
374V7W|1|DALarge subunit ribosomal RNA23S ribosomal RNAThermus thermophilusBacteriaRF02541Structure of the Thermus thermophilus ribosome complexed with chloramphenicol.X-ray diffraction32014-07-09
384V90|1|BALarge subunit ribosomal RNA23S RIBOSOMAL RNAThermus thermophilusBacteriaRF02541Thermus thermophilus RibosomeX-ray diffraction2.952014-07-09
394V8D|1|DALarge subunit ribosomal RNARNA (2912-MER)Thermus thermophilusBacteriaRF02541Structure analysis of ribosomal decoding (cognate tRNA-tyr complex).X-ray diffraction32014-07-09
404V51|1|BALarge subunit ribosomal RNA23S RIBOSOMAL RNAThermus thermophilusBacteriaRF02541Structure of the Thermus thermophilus 70S ribosome complexed with mRNA, tRNA and paromomycinX-ray diffraction2.82014-07-09
414V51|1|DALarge subunit ribosomal RNA23S RIBOSOMAL RNAThermus thermophilusBacteriaRF02541Structure of the Thermus thermophilus 70S ribosome complexed with mRNA, tRNA and paromomycinX-ray diffraction2.82014-07-09
424V7L|1|BALarge subunit ribosomal RNA23S ribosomal RNAThermus thermophilusBacteriaRF02541The structures of viomycin bound to the 70S ribosome.X-ray diffraction32014-07-09
434V7L|1|DALarge subunit ribosomal RNA23S ribosomal RNAThermus thermophilusBacteriaRF02541The structures of viomycin bound to the 70S ribosome.X-ray diffraction32014-07-09

Release history

Release2.7
Date2015-01-23

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent
NR_3.0_97519.2NR_all_97519.12.7(43) 1VY5|1|BA, 4LNT|1|YA, 4W2E|1|A, 4V8G|1|DA, 4W2I|1|BA, 4V7X|1|DA, 1VY4|1|DA, 4V51|1|DA, 4V8G|1|BA, 1VY5|1|DA, 4V7X|1|BA, 4V51|1|BA, 4W2F|1|DA, 4V8I|1|BA, 4V7Y|1|DA, 4W2F|1|BA, 4V67|1|DA, 4W2I|1|DA, 1VY6|1|DA, 4V7Y|1|BA, 4V67|1|BA, 1VY6|1|BA, 4V90|1|BA, 4V8B|1|BA, 4W2G|1|BA, 4V7L|1|BA, 4V8I|1|DA, 1VY7|1|DA, 1VY7|1|BA, 4V9H|1|BA, 4V8D|1|BA, 4W2G|1|DA, 4V7W|1|BA, 4LNT|1|RA, 4V8B|1|DA, 4V7L|1|DA, 1VY4|1|BA, 4V8D|1|DA, 4W2H|1|DA, 4V9R|1|BA, 4W2H|1|BA, 4V7W|1|DA, 4V9R|1|DA(0) (126) 4V5F|1|BA, 4V9N|1|BA, 4V4R|1|BA, 4V5R|1|DA, 4V7K|1|AA, 4V8C|1|AA, 4V9K|1|BA, 4V7M|1|BA, 4P70|1|RA, 4V8X|1|BA, 4L47|1|RA, 4V5D|1|BA, 4V6G|1|BA, 4V8N|1|BA, 4V5P|1|DA, 4V87|1|AA, 4V9I|1|BA, 4LT8|1|RA, 4V5K|1|BA, 4W29|1|BA, 4V5A|1|BA, 4V6A|1|BA, 4V8H|1|BA, 4V9A|1|BA, 4V83|1|BA, 4LFZ|1|RA, 4V5G|1|BA, 4V4T|1|BA, 4V8E|1|AA, 4V5S|1|DA, 4V9L|1|BA, 4V42|1|BA, 4V5E|1|BA, 4L71|1|RA, 4V7J|1|AA, 4V8O|1|BA, 4V8A|1|AA, 4P6F|1|RA, 4V9J|1|BA, 4V5L|1|BA, 4V5C|1|BA, 4V8J|1|BA, 4V6F|1|AA, 4V9Q|1|AA, 4V9B|1|BA, 4LSK|1|RA, 4V7P|1|BA, 4V5J|1|BA, 4V95|1|BA, 4V63|1|DA, 4V8F|1|AA, 4V4J|1|w, 4V9M|1|BA, 4V5Q|1|DA, 1VVJ|1|RA, 4V8U|1|BA, 4V84|1|BA, 4V5N|1|BA, 4V9S|1|BA, 4V4Y|1|BA, 4V7Z|1|BA, 4V97|1|BA, 4LEL|1|RA, 4V9B|1|DA, 4V84|1|DA, 4V6G|1|DA, 4LSK|1|YA, 4V8N|1|DA, 4V9S|1|DA, 4V4Z|1|BA, 4V68|1|BA, 4V8F|1|DA, 4V5K|1|DA, 4V7Z|1|DA, 4V97|1|DA, 4LEL|1|YA, 4V5F|1|DA, 4V9N|1|DA, 4V4S|1|BA, 4V5S|1|BA, 4V8C|1|BA, 4V9K|1|DA, 4V8X|1|DA, 4V7M|1|DA, 4L47|1|YA, 4P70|1|YA, 4V5D|1|DA, 4V5Q|1|BA, 4V4I|1|w, 4V87|1|DA, 4V9I|1|DA, 4LT8|1|YA, 4V5A|1|DA, 4W2

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child

Heat map of mutual geometric discrepancy, in Angstroms per nucleotide. Instances are ordered to put similar structures near each other. The colorbar ranges from 0 to the maximum observed discrepancy, up to 0.5

#S - ordering by similarity (same as in the heat map).
#SPDBTitleMethodResolutionLength
14V8D|1|DAStructure analysis of ribosomal decoding (cognate tRNA-tyr complex).X-RAY DIFFRACTION32907
24V8B|1|DACrystal structure analysis of ribosomal decoding (near-cognate tRNA-leu complex).X-RAY DIFFRACTION32907
34V8B|1|BACrystal structure analysis of ribosomal decoding (near-cognate tRNA-leu complex).X-RAY DIFFRACTION32912
44V8D|1|BAStructure analysis of ribosomal decoding (cognate tRNA-tyr complex).X-RAY DIFFRACTION32912
54LNT|1|RACrystal Structure of tRNA Proline (CGG) Bound to Codon CCC-U on the RibosomeX-RAY DIFFRACTION2.942882
64LNT|1|YACrystal Structure of tRNA Proline (CGG) Bound to Codon CCC-U on the RibosomeX-RAY DIFFRACTION2.942883
74V8G|1|DACrystal structure of RMF bound to the 70S ribosome.X-RAY DIFFRACTION32814
84V8G|1|BACrystal structure of RMF bound to the 70S ribosome.X-RAY DIFFRACTION32809
94V8I|1|BACrystal structure of YfiA bound to the 70S ribosome.X-RAY DIFFRACTION2.72827
104V8I|1|DACrystal structure of YfiA bound to the 70S ribosome.X-RAY DIFFRACTION2.72798
114V9R|1|BACrystal structure of antibiotic DITYROMYCIN bound to 70S ribosomeX-RAY DIFFRACTION32731
124W2F|1|BACrystal structure of the Thermus thermophilus 70S ribosome in complex with amicoumacin, mRNA and three deacylated tRNAs in the A, P and E sitesX-RAY DIFFRACTION2.42871
131VY6|1|BACrystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing short substrate-mimic Cytidine-Puromycin in the A site and acylated tRNA in the P site.X-RAY DIFFRACTION2.92819
141VY5|1|BACrystal structure of the Thermus thermophilus 70S ribosome in the post-catalysis state of peptide bond formation containing dipeptydil-tRNA in the A site and deacylated tRNA in the P site.X-RAY DIFFRACTION2.552819
154W2G|1|BACrystal structure of the Thermus thermophilus 70S ribosome in complex with pactamycin (soaked), mRNA and three deacylated tRNAs in the A, P and E sitesX-RAY DIFFRACTION2.552819
161VY4|1|BACrystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing acylated tRNA-substrates in the A and P sites.X-RAY DIFFRACTION2.62819
174W2H|1|BACrystal structure of the Thermus thermophilus 70S ribosome in complex with pactamycin (co-crystallized), mRNA and deacylated tRNA in the P siteX-RAY DIFFRACTION2.72822
184W2I|1|BACrystal structure of the Thermus thermophilus 70S ribosome in complex with negamycin, mRNA and three deacylated tRNAs in the A, P and E sitesX-RAY DIFFRACTION2.72822
191VY7|1|BACrystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing short substrate-mimic Cytidine-Cytidine-Puromycin in the A site and acylated tRNA in the P site.X-RAY DIFFRACTION2.82819
204W2H|1|DACrystal structure of the Thermus thermophilus 70S ribosome in complex with pactamycin (co-crystallized), mRNA and deacylated tRNA in the P siteX-RAY DIFFRACTION2.72800
214V9R|1|DACrystal structure of antibiotic DITYROMYCIN bound to 70S ribosomeX-RAY DIFFRACTION32714
224W2F|1|DACrystal structure of the Thermus thermophilus 70S ribosome in complex with amicoumacin, mRNA and three deacylated tRNAs in the A, P and E sitesX-RAY DIFFRACTION2.42800
234W2G|1|DACrystal structure of the Thermus thermophilus 70S ribosome in complex with pactamycin (soaked), mRNA and three deacylated tRNAs in the A, P and E sitesX-RAY DIFFRACTION2.552800
241VY4|1|DACrystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing acylated tRNA-substrates in the A and P sites.X-RAY DIFFRACTION2.62800
251VY5|1|DACrystal structure of the Thermus thermophilus 70S ribosome in the post-catalysis state of peptide bond formation containing dipeptydil-tRNA in the A site and deacylated tRNA in the P site.X-RAY DIFFRACTION2.552800
261VY6|1|DACrystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing short substrate-mimic Cytidine-Puromycin in the A site and acylated tRNA in the P site.X-RAY DIFFRACTION2.92800
271VY7|1|DACrystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing short substrate-mimic Cytidine-Cytidine-Puromycin in the A site and acylated tRNA in the P site.X-RAY DIFFRACTION2.82800
284W2I|1|DACrystal structure of the Thermus thermophilus 70S ribosome in complex with negamycin, mRNA and three deacylated tRNAs in the A, P and E sitesX-RAY DIFFRACTION2.72800
294W2E|1|ACrystal structure of Elongation Factor 4 (EF4/LepA) bound to the Thermus thermophilus 70S ribosomeX-RAY DIFFRACTION2.92873
304V67|1|DACrystal structure of a translation termination complex formed with release factor RF2.X-RAY DIFFRACTION32879
314V67|1|BACrystal structure of a translation termination complex formed with release factor RF2.X-RAY DIFFRACTION32879
324V7L|1|BAThe structures of viomycin bound to the 70S ribosome.X-RAY DIFFRACTION32800
334V7L|1|DAThe structures of viomycin bound to the 70S ribosome.X-RAY DIFFRACTION32800
344V51|1|DAStructure of the Thermus thermophilus 70S ribosome complexed with mRNA, tRNA and paromomycinX-RAY DIFFRACTION2.82772
354V51|1|BAStructure of the Thermus thermophilus 70S ribosome complexed with mRNA, tRNA and paromomycinX-RAY DIFFRACTION2.82772
364V7Y|1|DAStructure of the Thermus thermophilus 70S ribosome complexed with azithromycin.X-RAY DIFFRACTION32725
374V7Y|1|BAStructure of the Thermus thermophilus 70S ribosome complexed with azithromycin.X-RAY DIFFRACTION32725
384V7X|1|BAStructure of the Thermus thermophilus ribosome complexed with erythromycin.X-RAY DIFFRACTION32725
394V7X|1|DAStructure of the Thermus thermophilus ribosome complexed with erythromycin.X-RAY DIFFRACTION32725
404V7W|1|BAStructure of the Thermus thermophilus ribosome complexed with chloramphenicol.X-RAY DIFFRACTION32725
414V7W|1|DAStructure of the Thermus thermophilus ribosome complexed with chloramphenicol.X-RAY DIFFRACTION32725
424V9H|1|BACrystal structure of the ribosome bound to elongation factor G in the guanosine triphosphatase stateX-RAY DIFFRACTION2.862859
434V90|1|BAThermus thermophilus RibosomeX-RAY DIFFRACTION2.952901
Copyright 2024 BGSU RNA group. Page generated in 0.0659 s